MolNFT v1 · #63424 · protein

W354F yersinia enterocolitica ptpase complexed with divanadate

3F9B · Tyrosine-protein phosphatase yoph: “W354F yersinia enterocolitica ptpase complexed with divanadate”. X-ray diffraction, 2 ligands (PDV, VO4), 2 pockets (best druggability 0.46). MolNFT v1 #63424 on GenesisL1: 3D structure, binding…

PDB: 3F9B
Type: protein
Length: 282 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Tyrosine-protein phosphatase yoph
EC: 3.1.3.48
UniProt: P15273
Ligands: PDV, VO4
Pockets: 2 · best druggability 0.46

Structure

x-ray diffraction · 1 distinct chain · 37% helix, 20% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Tyrosine-protein phosphatase yoph (EC 3.1.3.48)	protein	282	37% helix, 20% strand	P15273

Ligands and binding sites

PDV · Divanadate ion · ligand · chains A
VO4 · Vanadate ion · ion · chains A
GOL · Glycerol · additive · 2 copies · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	154	0.46	0.76	22	empty
2	76	0.39	0.78	19	PDV

Compared structures

3F9B · W354F Yersinia enterocolitica PTPase complexed with divanadate · the same entry in another collection · chain A against A, TM-score 1.00
P15273 · AlphaFold monomer V2.0 prediction for tyrosine-protein phosphatase yoph (P15273) · a predicted model of the same protein · chain A against A, TM-score 0.99

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt P15273
Elsewhere: RCSB PDB 3F9B · PDBe 3F9B · UniProt P15273

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